It is December 2153, and Enterprise is still heading towards the red giant star (as per the events in episode Stratagem). Commander Tucker begins spending time with a female MACO, and Sub-Commander T'Pol begins to exhibit signs of suppressed jealousy. Meanwhile, the long-simmering tension between Lieutenant Malcolm Reed and Major Hayes finally comes to a head when Hayes approaches Archer over their security roles aboard Enterprise. Hayes suggests training together to share ideas, but Reed sees this as a move to undermine his authority.
Investigating a convergent region of spatial anomalies (created within the center of five spheres), the crew discover an alien pod containing a dying alien. The pod is retrieved, and the alien is taken to Sickbay, but Doctor Phlox can do little to keep him alive. Archer wishes to interrogate him, and does so against the Phlox's wishes. Meanwhile Hayes sets up a weapons training session, and comments continually at Reed's performance. They later get into a fistfight, much to Archer's chagrin.
T'Pol and Tucker finally continue their Vulcan 'neuropressure' sessions, and T'Pol reveals her conversation with Sim-Trip to him, and the two become intimate. She later thanks Tucker for his assistance of her "exploration of human sexuality". Back in Sickbay, the alien revives and physically begins to phase. He attacks Phlox, and then heads through walls towards the warp core, attempting to destabilize the magnetic seals. Reed and Hayes, now working together, stop the alien and he is returned to Sickbay. Archer, intent on getting answers, is frustrated as the alien dies and then disappears.